NP-MRD: Showing NP-Card for Prolyl-Methionine (NP0136613)

Jump To Section:

Identification Spectra BioTaxonomy ChemoTaxonomy Physical properties Links References XML

Record Information

Version

2.0

Created at

2022-05-12 15:19:03 UTC

Updated at

2022-05-12 15:19:03 UTC

NP-MRD ID

NP0136613

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Prolyl-Methionine

Description

Prolyl-Methionine, also known as p-m dipeptide or pro-met, belongs to the class of organic compounds known as dipeptides. These are organic compounds containing a sequence of exactly two alpha-amino acids joined by a peptide bond. Prolyl-Methionine is a very strong basic compound (based on its pKa). It is an incomplete breakdown product of protein digestion or protein catabolism. Prolyl-Methionine is a dipeptide composed of proline and methionine. This dipeptide has not yet been identified in human tissues or biofluids and so it is classified as an 'Expected' metabolite. Prolyl-Methionine was first documented in 1996 (PMID: 8558306). Some dipeptides are known to have physiological or cell-signaling effects although most are simply short-lived intermediates on their way to specific amino acid degradation pathways following further proteolysis.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 34 34  0  0  0  0  0  0  0  0999 V2000
    4.6895    1.5981   -0.0807 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3214    0.4165   -1.3971 S   0  0  0  0  0  0  0  0  0  0  0  0
    3.3739   -0.9973   -0.7348 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0527   -0.4496   -0.2641 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0987   -1.5072    0.2877 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.1036   -0.8212    0.7277 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8865    0.0683   -0.0118 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6205    0.3641   -1.1989 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0646    0.7051    0.5849 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.3604   -0.0949    0.3687 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3900    0.9324    0.7626 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7690    2.2354    0.3116 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4135    1.9385   -0.1190 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.8177   -2.5751   -0.6714 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3631   -2.7814   -1.1295 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7962   -3.4260   -1.1397 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.6789    2.0585   -0.3290 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7812    1.0824    0.8732 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9256    2.4074   -0.0304 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3028   -1.7556   -1.5066 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9712   -1.3908    0.1399 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2889    0.2680    0.5742 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5665    0.0718   -1.0756 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6277   -1.9158    1.1660 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4049   -1.0252    1.7400 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9575    0.8363    1.6730 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5212   -0.3454   -0.6991 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3859   -0.9984    1.0231 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3690    0.7520    0.2725 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4718    0.9798    1.8776 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6951    2.9630    1.1764 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3364    2.7311   -0.5117 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4275    1.7248   -1.1399 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2475   -4.0497   -0.4667 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  2  0
  7  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
  5 14  1  0
 14 16  1  0
 14 15  2  0
 13  9  1  0
  1 17  1  0
  1 18  1  0
  1 19  1  0
  3 20  1  0
  3 21  1  0
  4 22  1  0
  4 23  1  0
  5 24  1  1
  6 25  1  0
  9 26  1  1
 10 27  1  0
 10 28  1  0
 11 29  1  0
 11 30  1  0
 12 31  1  0
 12 32  1  0
 13 33  1  0
 16 34  1  0
M  END


  Mrv1652304062014082D          

 16 16  0  0  0  0            999 V2000
    1.7344   -2.9519    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4489   -3.3644    0.0000 S   0  0  0  0  0  0  0  0  0  0  0  0
    3.1634   -2.9519    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8779   -3.3644    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5923   -2.9519    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3068   -3.3644    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    6.0213   -2.9519    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0213   -2.1269    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.7357   -3.3644    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.4894   -3.0288    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.0414   -3.6419    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.6289   -4.3564    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.8220   -4.1848    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.5923   -2.1269    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.3068   -1.7144    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.8779   -1.7144    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  7  9  1  0  0  0  0
  9 10  1  0  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
  9 13  1  0  0  0  0
  5 14  1  0  0  0  0
 14 15  1  0  0  0  0
 14 16  2  0  0  0  0
M  END
> <DATABASE_ID>
NP0136613

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CSCCC(NC(=O)C1CCCN1)C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C10H18N2O3S/c1-16-6-4-8(10(14)15)12-9(13)7-3-2-5-11-7/h7-8,11H,2-6H2,1H3,(H,12,13)(H,14,15)

> <INCHI_KEY>
MTWJTFBVRDGROD-UHFFFAOYSA-N

> <FORMULA>
C10H18N2O3S

> <MOLECULAR_WEIGHT>
246.327

> <EXACT_MASS>
246.103813142

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
34

> <JCHEM_AVERAGE_POLARIZABILITY>
25.75959703729071

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
4-(methylsulfanyl)-2-[(pyrrolidin-2-yl)formamido]butanoic acid

> <ALOGPS_LOGP>
-1.08

> <JCHEM_LOGP>
-2.454435982394301

> <ALOGPS_LOGS>
-2.08

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
1

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.695616391710963

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.7808938025437135

> <JCHEM_PKA_STRONGEST_BASIC>
9.806180721630701

> <JCHEM_POLAR_SURFACE_AREA>
78.43

> <JCHEM_REFRACTIVITY>
62.450400000000016

> <JCHEM_ROTATABLE_BOND_COUNT>
6

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
2.04e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
4-(methylsulfanyl)-2-(pyrrolidin-2-ylformamido)butanoic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 06-APR-20   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   06-APR-20         0                                  
HETATM    1  C   UNK     0       3.238  -5.510   0.000  0.00  0.00           C+0
HETATM    2  S   UNK     0       4.571  -6.280   0.000  0.00  0.00           S+0
HETATM    3  C   UNK     0       5.905  -5.510   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       7.239  -6.280   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       8.572  -5.510   0.000  0.00  0.00           C+0
HETATM    6  N   UNK     0       9.906  -6.280   0.000  0.00  0.00           N+0
HETATM    7  C   UNK     0      11.240  -5.510   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0      11.240  -3.970   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0      12.573  -6.280   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      13.980  -5.654   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      15.011  -6.798   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      14.241  -8.132   0.000  0.00  0.00           C+0
HETATM   13  N   UNK     0      12.734  -7.812   0.000  0.00  0.00           N+0
HETATM   14  C   UNK     0       8.572  -3.970   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       9.906  -3.200   0.000  0.00  0.00           O+0
HETATM   16  O   UNK     0       7.239  -3.200   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6   14                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   13                                                  
CONECT   10    9   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12    9                                                       
CONECT   14    5   15   16                                                  
CONECT   15   14                                                            
CONECT   16   14                                                            
MASTER        0    0    0    0    0    0    0    0   16    0   32    0
END

View in JSmol

Synonyms

Value	Source
L-Prolyl-L-methionine	HMDB
p-m Dipeptide	HMDB
PM Dipeptide	HMDB
Pro-met	HMDB
Proline methionine dipeptide	HMDB
Proline-methionine dipeptide	HMDB
Prolylmethionine	HMDB
2-{[hydroxy(pyrrolidin-2-yl)methylidene]amino}-4-(methylsulfanyl)butanoate	Generator
2-{[hydroxy(pyrrolidin-2-yl)methylidene]amino}-4-(methylsulphanyl)butanoate	Generator
2-{[hydroxy(pyrrolidin-2-yl)methylidene]amino}-4-(methylsulphanyl)butanoic acid	Generator

Chemical Formula

C₁₀H₁₈N₂O₃S

Average Mass

246.3270 Da

Monoisotopic Mass

246.10381 Da

IUPAC Name

4-(methylsulfanyl)-2-[(pyrrolidin-2-yl)formamido]butanoic acid

Traditional Name

4-(methylsulfanyl)-2-(pyrrolidin-2-ylformamido)butanoic acid

CAS Registry Number

Not Available

SMILES

CSCCC(NC(=O)C1CCCN1)C(O)=O

InChI Identifier

InChI=1S/C10H18N2O3S/c1-16-6-4-8(10(14)15)12-9(13)7-3-2-5-11-7/h7-8,11H,2-6H2,1H3,(H,12,13)(H,14,15)

InChI Key

MTWJTFBVRDGROD-UHFFFAOYSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Not Available

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as dipeptides. These are organic compounds containing a sequence of exactly two alpha-amino acids joined by a peptide bond.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

Dipeptides

Alternative Parents

Substituents

Alpha-dipeptide
Methionine or derivatives
N-acyl-alpha amino acid or derivatives
N-acyl-alpha-amino acid
Proline or derivatives
Alpha-amino acid amide
Alpha-amino acid or derivatives
Pyrrolidine-2-carboxamide
Pyrrolidine carboxylic acid or derivatives
Thia fatty acid
Heterocyclic fatty acid
Fatty acyl
Fatty acid
Pyrrolidine
Carboxamide group
Amino acid or derivatives
Secondary carboxylic acid amide
Amino acid
Carboxylic acid
Secondary aliphatic amine
Monocarboxylic acid or derivatives
Azacycle
Organoheterocyclic compound
Dialkylthioether
Sulfenyl compound
Thioether
Secondary amine
Organic oxygen compound
Hydrocarbon derivative
Amine
Organopnictogen compound
Organonitrogen compound
Organooxygen compound
Organosulfur compound
Carbonyl group
Organic oxide
Organic nitrogen compound
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic compounds

External Descriptors

Not Available

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source
logP	-1.1	ALOGPS
logP	-2.5	ChemAxon
logS	-2.1	ALOGPS
pKa (Strongest Acidic)	3.78	ChemAxon
pKa (Strongest Basic)	9.81	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	78.43 Å²	ChemAxon
Rotatable Bond Count	6	ChemAxon
Refractivity	62.45 m³·mol⁻¹	ChemAxon
Polarizability	25.76 Å³	ChemAxon
Number of Rings	1	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

HMDB ID

HMDB0029023

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

5233577

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Pan Y, Bender PK, Akers RM, Webb KE Jr: Methionine-containing peptides can be used as methionine sources for protein accretion in cultured C2C12 and MAC-T cells. J Nutr. 1996 Jan;126(1):232-41. doi: 10.1093/jn/126.1.232. [PubMed:8558306 ]

Showing NP-Card for Prolyl-Methionine (NP0136613)

MOL for NP0136613 (Prolyl-Methionine)

3D MOL for NP0136613 (Prolyl-Methionine)

3D SDF for NP0136613 (Prolyl-Methionine)

3D-SDF for NP0136613 (Prolyl-Methionine)

PDB for NP0136613 (Prolyl-Methionine)

3D PDB for NP0136613 (Prolyl-Methionine)

SMILES for NP0136613 (Prolyl-Methionine)

INCHI for NP0136613 (Prolyl-Methionine)

Structure for NP0136613 (Prolyl-Methionine)

3D Structure for NP0136613 (Prolyl-Methionine)